genome.fa.s8426.2.7.7.80.10.50.1000.17.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4445546

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2101 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3969288--3969391	44	2.3	43	79	8	111	50	5	1	41	1.37
3969764--3969832	23	3.0	21	74	21	59	63	10	1	24	1.34
3986171--3986209	20	2.0	20	89	0	60	33	10	23	33	1.88
3990647--3990672	13	2.0	13	100	0	52	7	23	15	53	1.67
3993973--3994020	25	1.9	25	83	8	62	16	10	4	68	1.33
4000684--4000715	15	2.1	15	100	0	64	18	0	40	40	1.51
4008255--4008364	55	2.0	56	85	1	150	42	14	4	38	1.66
4011857--4011901	20	2.2	21	92	4	74	37	13	15	33	1.86
4013439--4013879	45	10.1	45	89	6	640	31	21	6	40	1.78
4013500--4013571	33	2.2	33	97	0	135	30	23	5	40	1.77
4016039--4016138	24	3.8	25	72	19	78	40	2	7	51	1.41
4016358--4016386	15	1.9	15	100	0	58	51	6	0	41	1.28
4016787--4016893	50	2.2	50	85	9	152	50	11	0	37	1.45
4016860--4016920	28	2.1	30	90	6	99	59	11	0	29	1.33
4017055--4017100	19	2.4	19	83	16	60	4	36	0	58	1.18
4017090--4017116	4	6.8	4	100	0	54	0	25	0	74	0.83
4018785--4018830	21	2.2	21	88	7	67	36	17	17	28	1.92
4019080--4019116	12	3.1	12	92	0	65	40	8	24	27	1.83
4019203--4019342	66	2.2	61	84	6	181	32	8	22	35	1.85
4019405--4019447	16	2.6	18	78	17	56	67	0	2	30	1.03
4019405--4019446	11	3.8	11	84	9	59	69	0	2	28	1.01
4022728--4022845	50	2.4	50	82	9	147	53	10	0	35	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4022803--4022865	28	2.2	30	94	5	112	57	12	0	30	1.36
4022807--4022872	28	2.4	28	87	10	107	56	12	0	31	1.36
4022842--4022906	21	3.1	21	95	0	112	53	15	0	30	1.42
4023014--4023079	19	3.5	20	87	8	68	6	30	0	63	1.18
4023491--4023534	21	2.1	21	100	0	88	27	22	34	15	1.95
4029571--4029616	21	2.2	21	96	0	83	36	15	15	32	1.88
4030912--4030943	15	2.1	15	100	0	64	56	6	6	31	1.49
4032074--4032131	6	9.7	6	92	0	80	31	50	13	5	1.64
4043928--4043970	6	7.2	6	89	0	68	32	46	16	4	1.67
4044950--4045148	6	33.2	6	98	0	263	26	49	16	7	1.72
4045305--4045341	17	2.2	17	100	0	74	29	45	0	24	1.53
4053456--4053499	21	2.0	21	82	4	52	38	13	6	40	1.71
4057703--4057768	30	2.2	30	79	15	75	43	24	0	31	1.54
4060759--4060793	12	2.8	13	86	8	54	37	5	5	51	1.50
4061377--4061597	48	4.8	47	87	3	272	34	22	5	36	1.79
4061702--4061823	40	3.0	40	96	0	226	33	27	15	23	1.95
4077170--4077217	25	1.9	25	91	8	80	45	8	16	29	1.76
4090327--4090694	59	6.2	59	89	0	538	31	11	22	34	1.90
4097187--4097509	59	5.5	59	86	1	461	30	14	20	34	1.92
4097187--4097512	116	2.8	118	86	4	453	31	14	20	34	1.92
4097187--4097509	175	1.8	177	87	1	488	30	14	20	34	1.92
4098530--4098554	12	2.1	12	100	0	50	52	32	8	8	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4112706--4112749	9	4.9	9	82	0	61	45	0	20	34	1.51
4121264--4121302	13	3.0	13	84	0	51	41	17	20	20	1.91
4121865--4121906	20	2.1	20	86	0	57	54	19	4	21	1.62
4138664--4138718	18	2.8	20	78	10	69	40	7	14	38	1.74
4140861--4140931	36	2.0	36	91	2	117	25	19	7	47	1.74
4142014--4142052	6	6.5	6	85	8	53	0	15	2	82	0.79
4155029--4155076	24	2.0	24	100	0	96	33	12	16	37	1.86
4155259--4155312	21	2.5	21	82	14	74	64	1	0	33	1.04
4162603--4162660	20	2.9	20	82	5	73	31	20	20	27	1.98
4168596--4168684	40	2.2	40	93	0	151	29	22	19	29	1.98
4169126--4169234	28	3.4	31	81	17	116	45	0	5	48	1.25
4169121--4169234	36	3.4	32	79	15	117	45	0	6	48	1.27
4170749--4170775	13	2.1	13	100	0	54	14	0	0	85	0.61
4173355--4173399	20	2.2	20	84	7	56	51	6	2	40	1.41
4177476--4177903	59	7.3	59	75	7	302	36	12	21	29	1.90
4177480--4177831	177	2.0	177	81	6	410	37	11	21	29	1.89
4178640--4178678	10	3.7	10	80	12	51	17	25	15	41	1.89
4178640--4178691	22	2.4	22	90	0	77	19	26	15	38	1.91
4179871--4179927	28	2.0	28	100	0	114	36	17	17	28	1.93
4182169--4183635	490	3.0	489	95	0	2657	33	12	23	30	1.91
4185740--4186010	59	4.6	59	78	5	289	39	11	21	28	1.88
4185748--4185968	117	1.9	117	85	6	304	37	10	21	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4185806--4186081	117	2.3	118	80	7	303	38	11	21	28	1.88
4186001--4186112	59	1.9	59	87	7	156	33	13	20	32	1.91
4185739--4186155	176	2.4	176	80	9	408	37	12	21	28	1.90
4186708--4186760	22	2.4	22	80	0	70	24	20	13	41	1.88
4187104--4187137	11	3.1	11	82	0	50	70	5	8	14	1.31
4197657--4197812	84	1.9	84	86	2	224	21	21	25	31	1.98
4202212--4202236	8	3.1	8	100	0	50	52	0	0	48	1.00
4205305--4205331	2	13.5	2	100	0	54	51	0	0	48	1.00
4208596--4208671	38	2.0	38	92	0	125	43	22	15	18	1.88
4210116--4210275	2	87.5	2	68	25	97	41	1	3	54	1.24
4210153--4210282	32	3.8	33	80	16	131	38	1	2	57	1.21
4210142--4210290	53	2.7	53	76	16	144	39	1	2	56	1.22
4210116--4210290	5	32.6	5	75	20	99	41	1	2	54	1.22
4210956--4211108	18	8.8	18	74	18	128	41	1	3	53	1.27
4210952--4211126	5	34.6	5	73	20	107	41	1	3	53	1.25
4210956--4211126	23	7.4	23	74	18	124	41	1	3	53	1.25
4209841--4212608	836	3.4	818	86	7	3646	36	17	13	32	1.89
4211787--4211904	2	67.0	2	68	29	74	42	0	1	55	1.16
4211787--4211904	7	16.8	8	73	24	74	42	0	1	55	1.16
4211787--4211919	5	25.4	5	76	19	87	42	0	1	55	1.14
4211833--4211920	3	30.3	3	74	21	73	37	1	0	61	1.04
4211795--4211920	60	2.2	59	83	12	163	40	0	1	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4213415--4213467	20	2.7	20	87	0	79	32	16	30	20	1.95
4213839--4214170	165	2.0	166	98	0	648	39	6	15	38	1.74
4214148--4214270	46	2.7	45	86	3	167	34	11	26	27	1.91
4214239--4214303	34	1.9	34	90	0	103	35	9	26	29	1.87
4219824--4219899	32	2.4	31	82	4	89	35	27	21	15	1.94
4220041--4220111	24	3.0	23	75	8	70	50	15	14	19	1.77
4221593--4221626	13	2.6	13	90	0	50	14	32	32	20	1.93
4223619--4223686	32	2.2	32	91	2	111	35	32	22	10	1.88
4223825--4223886	24	2.6	24	86	0	88	54	19	6	19	1.65
4238384--4238413	2	15.0	2	100	0	60	50	0	0	50	1.00
4239655--4239680	12	2.2	12	100	0	52	53	7	7	30	1.57
4242810--4242845	14	2.6	14	91	8	56	61	2	11	25	1.43
4242843--4242904	25	2.5	25	78	5	63	64	1	6	27	1.27
4243619--4243644	5	5.2	5	100	0	52	80	0	0	19	0.71
4248576--4248980	136	3.0	136	87	0	587	26	20	16	36	1.94
4250670--4250870	40	5.1	40	96	1	368	22	16	26	33	1.96
4250670--4250870	79	2.5	80	95	1	368	22	16	26	33	1.96
4251391--4251451	30	2.0	30	90	0	95	26	19	22	31	1.98
4251526--4251574	22	2.2	23	81	3	55	20	22	16	40	1.91
4252380--4252683	36	8.7	36	73	16	237	39	13	20	26	1.90
4252416--4252600	102	1.8	101	88	3	282	37	15	21	25	1.92
4252516--4252683	35	4.7	36	86	5	216	41	11	20	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4252622--4252718	50	1.9	52	85	4	135	41	10	16	31	1.82
4252657--4252685	15	1.9	15	100	0	58	44	6	20	27	1.77
4252586--4252751	86	1.9	87	81	6	203	42	12	16	28	1.84
4252674--4252751	36	2.2	37	83	4	97	42	14	12	30	1.83
4252887--4253365	86	5.6	86	89	1	687	32	15	24	26	1.95
4252899--4253365	171	2.7	172	89	2	708	32	16	24	26	1.96
4253346--4253455	42	2.6	41	77	7	114	30	21	20	27	1.98
4253659--4253800	55	2.6	53	81	9	178	41	16	9	32	1.81
4255048--4255129	28	2.9	28	83	0	110	26	2	29	41	1.69
4255825--4255875	20	2.4	21	87	6	68	56	7	19	15	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18